4JJH

Crystal structure of the D1 domain from human Nectin-4 extracellular fragment [PSI-NYSGRC-005624]

Structural Biology Knowledgebase: 4JJH SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.292
  • R-Value Work: 0.222

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4JJH

Classification: CELL ADHESION

Total Structure Weight: 28940.47

Macromolecule Entities
Molecule Chains Length Organism Details
Poliovirus receptor-related protein 4 A, B 133 Homo sapiens Fragment: D1 domain (UNP residues 32-153)
Gene Name(s): PVRL4 LNIR PRR4 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EDO
Query on EDO

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.292
  • R-Value Work: 0.222
  • Space Group: P 41

Unit Cell:

Length (Å) Angle (°)
a = 35.19 α = 90.00
b = 35.19 β = 90.00
c = 205.33 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-03-07
  • Released Date: 2013-03-27
  • Deposition author(s): Kumar, P.R., Bonanno, J., Ahmed, M., Banu, R., Bhosle, R., Calarese, D., Celikigil, A., Chamala, S., Chan, M.K., Chowdhury, S., Fiser, A., Garforth, S., Glenn, A.S., Hillerich, B., Khafizov, K., Love, J., Patel, H., Seidel, R., Stead, M., Toro, R., Nathenson, S.G., Almo, S.C., New York Structural Genomics Research Consortium (NYSGRC), Atoms-to-Animals: The Immune Function Network (IFN)

Revision History

  • 2013-11-27
    Type: Function and keywords | Details: --